tRNA processing

Across TCGA patient cohorts, RNA activity of the tRNA processing pathway is significantly associated with the RNA expression of multiple genes, with the GBM cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are RAPGEF3, SENCR, and SPTLC2, each associated with the pathway in up to 7 cancer types. Since the analysis shows associations rather than directional relationships, both pathway-to-partner and partner-to-pathway views are reported.

Each partner is linked to its corresponding Q-omics profile. The scatter plot shows the strongest association, tRNA processing activity versus RAPGEF3 in GBM (Pearson r = -0.30).

Pathway-associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (pathway→partner) and Y-score (partner→pathway) are standardized regression coefficients; both directions are reported because the association is undirected. The reported p-values are derived from the association test.

Lineage	Partner gene	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
GBM	RAPGEF3 →	-0.740	-0.172	<.001	<.001	3	6
GBM	SENCR →	-0.523	-0.198	.003	<.001	2	7
LUAD	SPTLC2 →	-0.438	-0.117	<.001	.003	3	5
GBM	KIAA0513 →	-0.742	-0.175	<.001	<.001	3	5
COAD	MIR29B2CHG →	-0.436	-0.276	<.001	<.001	3	5
GBM	CAMK2A →	-1.011	-0.141	.004	<.001	3	5

Each partner links to its Q-omics profile. Showing the 6 strongest associations by consensus.

GO:0008033 vs RAPGEF3 — GBM

Explore this scatter interactively →